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root/gclib/tophat_cpp
r310
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SeqAn-1.3/ 209 (4 years ago) by gpertea:
FastaTools.cpp 165 (4 years ago) by gpertea: sync back with Daehwan. Test bam_merge for memory leaks!
FastaTools.h 165 (4 years ago) by gpertea: sync back with Daehwan. Test bam_merge for memory leaks!
GArgs.cpp 256 (3 years ago) by gpertea: sync with Daehwan's fixes
GArgs.h 256 (3 years ago) by gpertea: sync with Daehwan's fixes
GBase.cpp 228 (4 years ago) by gpertea: wip - prefiltering fix
GBase.h 228 (4 years ago) by gpertea: wip - prefiltering fix
GFaSeqGet.cpp 228 (4 years ago) by gpertea: wip - prefiltering fix
GFaSeqGet.h 228 (4 years ago) by gpertea: wip - prefiltering fix
GFastaIndex.cpp 29 (4 years ago) by gpertea: adding tophat source work
GFastaIndex.h 29 (4 years ago) by gpertea: adding tophat source work
GHash.hh 228 (4 years ago) by gpertea: wip - prefiltering fix
GList.hh 228 (4 years ago) by gpertea: wip - prefiltering fix
GStr.cpp 228 (4 years ago) by gpertea: wip - prefiltering fix
GStr.h 228 (4 years ago) by gpertea: wip - prefiltering fix
GTFToFasta.cpp 165 (4 years ago) by gpertea: sync back with Daehwan. Test bam_merge for memory leaks!
GTFToFasta.h 165 (4 years ago) by gpertea: sync back with Daehwan. Test bam_merge for memory leaks!
Makefile 263 (3 years ago) by gpertea: resuming works
align_status.cpp 257 (3 years ago) by gpertea: update
align_status.h 200 (4 years ago) by gpertea:
alphabet.h 29 (4 years ago) by gpertea: adding tophat source work
assert_helpers.h 29 (4 years ago) by gpertea: adding tophat source work
bam2fastx.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
bam_dump.cpp 29 (4 years ago) by gpertea: adding tophat source work
bam_merge.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
bam_merge.h 261 (3 years ago) by gpertea:
bam_merge_impl.cpp 261 (3 years ago) by gpertea:
bed_to_juncs.py 29 (4 years ago) by gpertea: adding tophat source work
bwt2sam.cpp 29 (4 years ago) by gpertea: adding tophat source work
bwt_map.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
bwt_map.h 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
closures.cpp 245 (4 years ago) by gpertea: merge-sync attempt
closures.h 245 (4 years ago) by gpertea: merge-sync attempt
codons.cpp 29 (4 years ago) by gpertea: adding tophat source work
codons.h 29 (4 years ago) by gpertea: adding tophat source work
common.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
common.h 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
config.h 200 (4 years ago) by gpertea:
contig_to_chr_coords.py 29 (4 years ago) by gpertea: adding tophat source work
coverage.cpp 261 (3 years ago) by gpertea:
coverage.h 261 (3 years ago) by gpertea:
deletions.cpp 245 (4 years ago) by gpertea: merge-sync attempt
deletions.h 236 (4 years ago) by gpertea: sync, wip prep_reads
extract_reads.cpp 135 (4 years ago) by gpertea: wip - SplicedSAMHitFactory() still not implemented
fix_map_ordering.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
fragments.cpp 200 (4 years ago) by gpertea:
fragments.h 200 (4 years ago) by gpertea:
fusions.cpp 245 (4 years ago) by gpertea: merge-sync attempt
fusions.h 245 (4 years ago) by gpertea: merge-sync attempt
gdna.cpp 228 (4 years ago) by gpertea: wip - prefiltering fix
gdna.h 228 (4 years ago) by gpertea: wip - prefiltering fix
gff.cpp 254 (4 years ago) by gpertea: fix_map_ordering wip to throw away not "acceptable" mappings
gff.h 239 (4 years ago) by gpertea: wip prep_reads.cpp, tophat
gtf_juncs.cpp 254 (4 years ago) by gpertea: fix_map_ordering wip to throw away not "acceptable" mappings
insertions.cpp 246 (4 years ago) by gpertea: wip, -M option still broken!
insertions.h 236 (4 years ago) by gpertea: sync, wip prep_reads
inserts.cpp 245 (4 years ago) by gpertea: merge-sync attempt
inserts.h 245 (4 years ago) by gpertea: merge-sync attempt
juncs_db.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
junctions.cpp 200 (4 years ago) by gpertea:
junctions.h 254 (4 years ago) by gpertea: fix_map_ordering wip to throw away not "acceptable" mappings
library_stats.cpp 29 (4 years ago) by gpertea: adding tophat source work
long_spanning_reads.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
map2gtf.cpp 259 (3 years ago) by gpertea: updated to v2.0.4
map2gtf.h 259 (3 years ago) by gpertea: updated to v2.0.4
mask_sam.cpp 245 (4 years ago) by gpertea: merge-sync attempt
prep_reads.cpp 259 (3 years ago) by gpertea: updated to v2.0.4
qual.cpp 29 (4 years ago) by gpertea: adding tophat source work
qual.h 29 (4 years ago) by gpertea: adding tophat source work
reads.cpp 237 (4 years ago) by gpertea: wip
reads.h 257 (3 years ago) by gpertea: update
sam2bam.cpp 29 (4 years ago) by gpertea: adding tophat source work
sam_juncs.cpp 135 (4 years ago) by gpertea: wip - SplicedSAMHitFactory() still not implemented
segment_juncs.cpp 259 (3 years ago) by gpertea: updated to v2.0.4
segments.h 29 (4 years ago) by gpertea: adding tophat source work
sra_to_solid.py 29 (4 years ago) by gpertea: adding tophat source work
timer.h 29 (4 years ago) by gpertea: adding tophat source work
tokenize.cpp 29 (4 years ago) by gpertea: adding tophat source work
tokenize.h 29 (4 years ago) by gpertea: adding tophat source work
tophat 263 (3 years ago) by gpertea: resuming works
tophat_reports.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
utils.cpp 260 (3 years ago) by gpertea: wip tophat.py - adding resume feature
utils.h 158 (4 years ago) by gpertea:
wiggles.cpp 29 (4 years ago) by gpertea: adding tophat source work
wiggles.h 29 (4 years ago) by gpertea: adding tophat source work
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